Copy Number
The putative cancer-associated PDGs driven by SCNAs in each cancer type were identified by four criteria: 1) located in a peak region of a significantly recurrent focal SNCA locus estimated by the genomic identification of significant targets in cancer (GISTIC2) algorithm, (q≤0.25); 2) altered with high frequency and large amplitude (G-score ≥0.1); 3) mRNA reliably detected in at least 10% of tumor specimens in the given cancer type (90th percentile of FPKM value ≥1); and 4) mRNA significantly and positively correlated with copy numbers (Pearson P-value less than 0.001).
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| KIRC | KIRP | KICH | PRAD | BLCA | THYM | MESO | LUAD | LUSC | HNSC | ESCA | STAD | COAD | READ | PAAD | LIHC | CHOL | ACC | PCPG | THCA | BRCA | OV | CESC | UCEC | UCS | SARC | TGCT | LAML | DLBC | LGG | GBM | UVM | SKCM | |||||||||||||||||||||||||||||||||||
| HGNC Symbol | Ensembl Gene ID | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del |
| GPR6 | ENSG00000146360 | 0.00 | 0.04 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.29 | 0.02 | 0.12 | 0.00 | 0.01 | 0.00 | 0.13 | 0.02 | 0.06 | 0.04 | 0.05 | 0.02 | 0.03 | 0.03 | 0.07 | 0.05 | 0.07 | 0.01 | 0.03 | 0.01 | 0.05 | 0.00 | 0.03 | 0.00 | 0.09 | 0.00 | 0.15 | 0.08 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 0.10 | 0.09 | 0.25 | 0.04 | 0.02 | 0.07 | 0.02 | 0.16 | 0.03 | 0.14 | 0.07 | 0.00 | 0.04 | 0.01 | 0.00 | 0.01 | 0.25 | 0.00 | 0.02 | 0.02 | 0.05 | 0.00 | 0.03 | 0.00 | 0.13 |
| TAAR2 | ENSG00000146378 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.01 | 0.07 | 0.05 | 0.00 | 0.01 | 0.00 | 0.14 | 0.03 | 0.04 | 0.05 | 0.03 | 0.05 | 0.01 | 0.10 | 0.02 | 0.08 | 0.02 | 0.02 | 0.01 | 0.04 | 0.03 | 0.00 | 0.02 | 0.01 | 0.08 | 0.00 | 0.10 | 0.04 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.05 | 0.06 | 0.28 | 0.01 | 0.02 | 0.05 | 0.03 | 0.08 | 0.03 | 0.30 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.15 | 0.00 | 0.05 | 0.00 | 0.10 | 0.00 | 0.09 | 0.01 | 0.12 |
| TAAR6 | ENSG00000146383 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.00 | 0.07 | 0.05 | 0.00 | 0.01 | 0.00 | 0.14 | 0.03 | 0.04 | 0.05 | 0.03 | 0.05 | 0.01 | 0.10 | 0.02 | 0.08 | 0.02 | 0.02 | 0.01 | 0.04 | 0.03 | 0.00 | 0.02 | 0.01 | 0.08 | 0.00 | 0.10 | 0.04 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.05 | 0.06 | 0.28 | 0.01 | 0.02 | 0.05 | 0.03 | 0.08 | 0.03 | 0.30 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.15 | 0.00 | 0.05 | 0.00 | 0.11 | 0.00 | 0.09 | 0.01 | 0.12 |
| TAAR8 | ENSG00000146385 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.00 | 0.07 | 0.05 | 0.00 | 0.01 | 0.00 | 0.14 | 0.03 | 0.04 | 0.05 | 0.03 | 0.05 | 0.01 | 0.10 | 0.02 | 0.08 | 0.02 | 0.02 | 0.02 | 0.04 | 0.03 | 0.00 | 0.02 | 0.01 | 0.08 | 0.00 | 0.10 | 0.04 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.05 | 0.06 | 0.28 | 0.01 | 0.02 | 0.05 | 0.03 | 0.08 | 0.03 | 0.30 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.15 | 0.00 | 0.05 | 0.00 | 0.11 | 0.00 | 0.09 | 0.01 | 0.12 |
| TAAR1 | ENSG00000146399 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.01 | 0.07 | 0.05 | 0.00 | 0.01 | 0.00 | 0.14 | 0.03 | 0.04 | 0.05 | 0.03 | 0.05 | 0.01 | 0.10 | 0.02 | 0.09 | 0.02 | 0.02 | 0.01 | 0.04 | 0.03 | 0.00 | 0.02 | 0.01 | 0.08 | 0.00 | 0.10 | 0.04 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.04 | 0.06 | 0.28 | 0.01 | 0.02 | 0.05 | 0.03 | 0.08 | 0.03 | 0.29 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.15 | 0.00 | 0.05 | 0.00 | 0.10 | 0.00 | 0.09 | 0.01 | 0.13 |
| VIP | ENSG00000146469 | 0.00 | 0.06 | 0.00 | 0.01 | 0.00 | 0.05 | 0.01 | 0.02 | 0.02 | 0.08 | 0.00 | 0.02 | 0.00 | 0.17 | 0.02 | 0.06 | 0.06 | 0.05 | 0.03 | 0.03 | 0.07 | 0.04 | 0.08 | 0.04 | 0.02 | 0.01 | 0.04 | 0.02 | 0.00 | 0.03 | 0.01 | 0.11 | 0.00 | 0.16 | 0.10 | 0.06 | 0.00 | 0.02 | 0.00 | 0.00 | 0.09 | 0.08 | 0.05 | 0.39 | 0.01 | 0.07 | 0.04 | 0.03 | 0.12 | 0.03 | 0.25 | 0.03 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.05 | 0.01 | 0.08 | 0.04 | 0.06 | 0.01 | 0.14 |
| IGFBP1 | ENSG00000146678 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.04 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.01 | 0.09 | 0.02 | 0.07 | 0.01 | 0.11 | 0.03 | 0.06 | 0.01 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.00 | 0.01 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.02 | 0.09 | 0.06 | 0.02 | 0.00 | 0.03 | 0.01 | 0.02 | 0.00 | 0.05 | 0.03 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.05 | 0.03 | 0.00 | 0.03 | 0.01 | 0.00 | 0.00 | 0.03 | 0.02 |
| SSC4D | ENSG00000146700 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.01 | 0.05 | 0.02 | 0.00 | 0.00 | 0.02 | 0.00 | 0.03 | 0.02 | 0.12 | 0.02 | 0.05 | 0.03 | 0.15 | 0.02 | 0.12 | 0.02 | 0.01 | 0.01 | 0.02 | 0.00 | 0.02 | 0.01 | 0.05 | 0.01 | 0.00 | 0.01 | 0.03 | 0.01 | 0.01 | 0.02 | 0.00 | 0.00 | 0.06 | 0.03 | 0.17 | 0.07 | 0.05 | 0.01 | 0.06 | 0.03 | 0.14 | 0.03 | 0.05 | 0.07 | 0.09 | 0.00 | 0.00 | 0.00 | 0.10 | 0.00 | 0.02 | 0.01 | 0.06 | 0.01 | 0.00 | 0.00 | 0.06 | 0.02 |
| SLC12A9 | ENSG00000146828 | 0.02 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.06 | 0.01 | 0.06 | 0.01 | 0.00 | 0.00 | 0.03 | 0.00 | 0.11 | 0.01 | 0.21 | 0.02 | 0.22 | 0.01 | 0.46 | 0.03 | 0.21 | 0.02 | 0.02 | 0.01 | 0.01 | 0.00 | 0.08 | 0.01 | 0.06 | 0.02 | 0.11 | 0.01 | 0.08 | 0.03 | 0.00 | 0.02 | 0.00 | 0.00 | 0.08 | 0.03 | 0.20 | 0.05 | 0.08 | 0.01 | 0.06 | 0.02 | 0.15 | 0.03 | 0.07 | 0.04 | 0.07 | 0.01 | 0.00 | 0.00 | 0.13 | 0.00 | 0.07 | 0.00 | 0.03 | 0.01 | 0.00 | 0.00 | 0.05 | 0.03 |
| TMEM27 | ENSG00000147003 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.06 | 0.01 | 0.04 | 0.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.04 | 0.11 | 0.03 | 0.02 | 0.02 | 0.06 | 0.04 | 0.05 | 0.02 | 0.00 | 0.01 | 0.12 | 0.02 | 0.00 | 0.01 | 0.01 | 0.02 | 0.00 | 0.01 | 0.02 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.05 | 0.03 | 0.14 | 0.16 | 0.05 | 0.01 | 0.04 | 0.02 | 0.06 | 0.07 | 0.11 | 0.05 | 0.06 | 0.01 | 0.00 | 0.00 | 0.00 | 0.07 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.04 | 0.02 |
| SPIN2A | ENSG00000147059 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.04 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.06 | 0.01 | 0.04 | 0.03 | 0.06 | 0.01 | 0.12 | 0.04 | 0.03 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.07 | 0.00 | 0.03 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.23 | 0.04 | 0.03 | 0.03 | 0.09 | 0.01 | 0.29 | 0.03 | 0.17 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.06 | 0.01 | 0.02 | 0.00 | 0.03 | 0.00 | 0.01 | 0.00 |
| HDAC8 | ENSG00000147099 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.02 | 0.00 | 0.04 | 0.02 | 0.00 | 0.00 | 0.00 | 0.02 | 0.04 | 0.02 | 0.05 | 0.04 | 0.03 | 0.01 | 0.12 | 0.02 | 0.04 | 0.02 | 0.01 | 0.01 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.02 | 0.18 | 0.02 | 0.03 | 0.02 | 0.04 | 0.01 | 0.08 | 0.00 | 0.16 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.05 | 0.03 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 |
| GPR174 | ENSG00000147138 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.03 | 0.05 | 0.02 | 0.03 | 0.01 | 0.06 | 0.02 | 0.02 | 0.01 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.03 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.02 | 0.11 | 0.03 | 0.03 | 0.02 | 0.03 | 0.01 | 0.01 | 0.05 | 0.19 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.02 | 0.02 | 0.01 | 0.01 | 0.00 | 0.00 | 0.02 | 0.02 | 0.01 |
| EBP | ENSG00000147155 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.04 | 0.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.09 | 0.03 | 0.05 | 0.02 | 0.02 | 0.02 | 0.04 | 0.04 | 0.04 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.17 | 0.00 | 0.03 | 0.00 | 0.00 | 0.00 | 0.06 | 0.01 | 0.44 | 0.07 | 0.03 | 0.03 | 0.11 | 0.01 | 0.19 | 0.03 | 0.11 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.02 | 0.00 |
| IL2RG | ENSG00000147168 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.01 | 0.00 | 0.05 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.02 | 0.03 | 0.04 | 0.02 | 0.01 | 0.09 | 0.02 | 0.02 | 0.02 | 0.01 | 0.01 | 0.00 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.02 | 0.14 | 0.04 | 0.02 | 0.01 | 0.03 | 0.01 | 0.18 | 0.00 | 0.15 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.02 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 |
| GPR119 | ENSG00000147262 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.05 | 0.04 | 0.05 | 0.01 | 0.03 | 0.02 | 0.09 | 0.02 | 0.09 | 0.02 | 0.05 | 0.01 | 0.10 | 0.02 | 0.12 | 0.01 | 0.03 | 0.00 | 0.05 | 0.02 | 0.01 | 0.00 | 0.09 | 0.03 | 0.00 | 0.01 | 0.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.02 | 0.19 | 0.05 | 0.08 | 0.00 | 0.02 | 0.01 | 0.08 | 0.08 | 0.02 | 0.14 | 0.00 | 0.02 | 0.00 | 0.00 | 0.07 | 0.05 | 0.01 | 0.02 | 0.01 | 0.01 | 0.00 | 0.00 | 0.02 | 0.01 |
| NSDHL | ENSG00000147383 | 0.03 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.10 | 0.04 | 0.06 | 0.00 | 0.06 | 0.01 | 0.21 | 0.01 | 0.17 | 0.02 | 0.13 | 0.00 | 0.16 | 0.01 | 0.17 | 0.02 | 0.05 | 0.00 | 0.10 | 0.01 | 0.06 | 0.00 | 0.12 | 0.03 | 0.10 | 0.01 | 0.20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.03 | 0.41 | 0.09 | 0.21 | 0.02 | 0.09 | 0.03 | 0.09 | 0.07 | 0.17 | 0.07 | 0.01 | 0.02 | 0.00 | 0.00 | 0.15 | 0.07 | 0.02 | 0.03 | 0.03 | 0.01 | 0.05 | 0.00 | 0.07 | 0.02 |
| GNRH1 | ENSG00000147437 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.22 | 0.01 | 0.12 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.06 | 0.00 | 0.09 | 0.00 | 0.06 | 0.02 | 0.07 | 0.01 | 0.05 | 0.00 | 0.11 | 0.00 | 0.18 | 0.00 | 0.04 | 0.00 | 0.11 | 0.00 | 0.08 | 0.02 | 0.00 | 0.02 | 0.02 | 0.00 | 0.00 | 0.01 | 0.16 | 0.02 | 0.45 | 0.00 | 0.05 | 0.00 | 0.11 | 0.00 | 0.26 | 0.01 | 0.08 | 0.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.01 | 0.00 | 0.02 | 0.00 | 0.01 | 0.02 | 0.05 |
| SLC25A37 | ENSG00000147454 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.24 | 0.01 | 0.15 | 0.00 | 0.00 | 0.00 | 0.03 | 0.01 | 0.07 | 0.00 | 0.11 | 0.00 | 0.06 | 0.01 | 0.06 | 0.01 | 0.04 | 0.00 | 0.10 | 0.01 | 0.18 | 0.00 | 0.05 | 0.00 | 0.12 | 0.00 | 0.05 | 0.02 | 0.00 | 0.02 | 0.02 | 0.00 | 0.00 | 0.01 | 0.17 | 0.01 | 0.45 | 0.00 | 0.06 | 0.01 | 0.12 | 0.00 | 0.24 | 0.02 | 0.07 | 0.03 | 0.01 | 0.00 | 0.00 | 0.00 | 0.11 | 0.00 | 0.01 | 0.00 | 0.02 | 0.00 | 0.01 | 0.00 | 0.04 |
| CRH | ENSG00000147571 | 0.01 | 0.01 | 0.00 | 0.01 | 0.06 | 0.00 | 0.04 | 0.01 | 0.09 | 0.01 | 0.00 | 0.00 | 0.00 | 0.05 | 0.14 | 0.02 | 0.10 | 0.03 | 0.06 | 0.01 | 0.11 | 0.01 | 0.10 | 0.01 | 0.06 | 0.00 | 0.14 | 0.03 | 0.01 | 0.01 | 0.08 | 0.01 | 0.06 | 0.02 | 0.02 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.21 | 0.02 | 0.34 | 0.07 | 0.03 | 0.01 | 0.07 | 0.01 | 0.26 | 0.09 | 0.14 | 0.04 | 0.20 | 0.00 | 0.01 | 0.00 | 0.00 | 0.05 | 0.00 | 0.01 | 0.01 | 0.01 | 0.22 | 0.00 | 0.05 | 0.01 |
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